Though it has been 2 and a half years since ME3's last dlc came out I thought this theory still holds up. By all rights this still can be talked about for new players come and still wonder what happened at the end. Though there are many interpretations upon the ending itself the Indoctrination Theory is a heavily implied theory that Shepard is being Indoctrinated at the end of the game.
It's not hard to believe at this point that Shepard is being so.: Shepard is a symbolic of change in the galaxy. Good or bad depending on the way you play as your Shepard. The Reapers consider Shepard as threat and have tried their best to stop Shepard in the past yet they have failed, even when they killed Shepard. Thus at the beginning of the game the child would come into play. If you have played arrival before playing ME3 you already know Shepard was captured by Harbinger via Kenson capturing your Shepard. for days Shepard was near the Reaper artifact and for the first time Harbinger had access to Shepard without anything from protecting Shepard.
Though many can argue because this is OUR Shepard and he/she can't sub-come to indoctrination, yet we forget that Shepard is still human by right and is still bound to the laws of ME. Though Indoctrination can happen slowly or rapidly, Shepard case slowly builds over time while isolated for months due to the events of ME2 Arrival if played. Thus we get back to the child.
The child is the representation of Shepard's will:. If we think about it, it makes sense. The child is only seen by Shepard and not once did Anderson ever bother to wonder why Shepard stopped. We also have to consider the child vanishes after we hear a Reaper growl which feels ominous. Granted there are Reapers just outside, but the growl is rarely heard. The Horn/slandered Reaper noise however isn't which is the majority we hear throughout ME3.
After events pass Shepard has three main nightmares about the boy and each nightmare gets worse to the point it gets very close to the Indoctrination codex basic symptoms of Indoctrination. Though others claim it is PTSD we know that PTSD would happen if something triggered Shepard to feel that way. This can be dis proven since at the end of the game Shepard is not reacting to the catalyst being the boy, rather than Shepard is calm and accepting the catalyst being the boy.
Moreover when Harbinger comes in blasting everything we KNOW that Harbinger has good aim.: It was killing anyone coming down the hill. To just not kill Shepard or Shepard somehow surviving makes no sense, even if you have "plot armor" it doesn't fit. Plus when Anderson says he followed you up something isn't right. Anderson's comm works. Why didn't Anderson call for backup, why didn't Shepard for the most part call the Major to not full back?
All of this leads to speculations upon this is all in Shepard's mind. We know that the ME end game is heavily been reused models for certain key parts in the Citadel and the ME1 Conduit run. This all fits in with Leviathan dlc. Leviathan was able to get into Shepard's mind and create a world within it. even was able to take an OBJECT and the APPEARANCES of a person Shepard knew. Leviathan tells us the Reapers perfected their enthrallment which gave birth to indoctrination. Therefore we can make an educated guess that the Reapers did construct a world within Shepard's mind in-order to finally bring Shepard to their side.
Now for the catalyst. Though leviathan said Harbinger is the first reaper to be born, it didn't rule out that the catalyst did combine itself with Harbinger. It's a possibility yet if Harbinger has been the leading "force" for the Reapers and is at the end of the game. It would make sense that the Boss from ME2 would be capable of doing this to Shepard since Harbinger tried it in Arrival, and has wanted Shepard dead or alive. And the kicker is also that since Harbinger is the only reaper there and we know that this child has been haunting Shepard since the beginning. Who better to use the child since this child is considered "PURE" and stands for all the deaths that have happened and a voice that can reach-out to Shepard.
Granted that is a big assumption the meat of this is the endings themselves and what they stand for.
Destroy: Represents everything Shepard has been fighting for. All of this has been to stop the Reapers at all cost no matter what. Everyone signed up for this operation to see this threw. It is ironic that synthetics have to die in-order to save Organics when we have the option of making peace, yet that is WHAT the catalyst wants. "Harbinger" wants you to be moved by this and not do it. Gives you a logical assumption that all of this shall happen again, that being synthetics vs organics is going to be the result. Even says "Partly synthetic to Shepard" thus hinting that Shepard will most likely die as well which is isn't the case in the LAST ending you can unlock. "Breath scene". This makes sense seeing how by staying true to ones goals, and managed to retain ones will, Shepard is able to break free of the Indoctrination attempt and wake up.
Now how this is the case is quite simple. the more assets you gain the more likely Shepard has to live since the more assets the better the chances Shepard has in waking up on Earth. I say Earth since the breath scene can be taken either way as either on the Citadel or on Earth. Now for the Earth idea it has to do with Harbinger not killing your Shepard BUT pushing Shepard back with the force explosion of the beam. Thus we start the hallucination in Shepard's mind and the Indoctrination test begins.
As the more assets you have they are able to manage to retrieve Shepard, It would make sense. You would need something of great power to distract harbinger while someone retrieves Shepard.
As for Synthesis and Control: They are what the Reapers want. TIM wanted to control the Reapers but was already being controlled by them. To listen to a person who was an agent of the Reapers, and having the catalyst just simply give up his power is very uneasy. In synthesis the catalyst wants this option to become, and even tells us automatically that peace shall happen. The problem is. HOW does it now these outcomes fully? In Destroy it tells us that Organics and synthetics will be at war again, but it already knows synthesis will bring peace, and control will have Shepard lead the Reapers. The HUGE problem is the galaxy would NOT welcome the Reapers. There would be death and destruction, All those children that have lost their parents would want revenge and those that KNOW about the reapers would seek vengeance upon them.
Now time for the EC slides. We know that in Destroy the soldiers have the WILL to fight and stand their ground in the other endings they do not and are overwhelmed. This shows us that in a symbolic way that you either have won the fight or have lost the fight. Think about it, the soldiers represent Shepard will. if the soldiers fall, and one of them hides in fear, it means Shepard has given up. Yet when they stand their ground it shows us that they stood up to the bitter end. The Reapers dying in Destroy represent indoctrination failing. In synthesis and control it represents the Reapers having accesses to Shepard.
As we go from there we are shown promises of the future and HOPE if we have high EMS for all endings. While this is a interesting way to send off ME3, the problem here is the way it is done. Hackett talks in a more victorious way and there is hope. Edi sounds as if she isn't her and nor does there ever to be seem a WAR happened. In Control Shepard sounds not him/her. the "AI" copy sounds easily too much like the Catalyst in either end. Ones wants peace, while the other wants force.
And finally the memorial. There is no way they know Anderson is dead. Shepard never told them and nobody could see Anderson die other than Shepard. For the Destroy ending in high EMS ( the best ending in terms of unlocking) they don't put Shepard's name up. A good reason could be is because Shepard knows he/she is not dead and thus is able to wake up. Though granted there is peace, something is telling Shepard that there is a future for him/her. In low and mid ems Destroy Shepard won't wake up since he/she thinks he/she has failed the galaxy and in high ems destroy without the breath ending, Shepard is starting to feel at peace and is possibly about to wake up YET since there isn't enough ems assets Shepard is killed.
Overall the Indoctrination Theory is a huge one to take in since this contradicts so much of ME3, yet makes sense. Though others will/have argued about it the thing about IT is it is a theory and have evidence to back up just hasn't been confirmed and it may never will. however it doesn't stop people from talking bout it since it makes sense of ME3.





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